Locus 1577

Sequence ID 2L_DroMel_CAF1
Location 4,247,559 – 4,247,697
Length 138
Max. P 0.999646
window2538 window2539

overview

Window 8

Location 4,247,559 – 4,247,666
Length 107
Sequences 3
Columns 107
Reading direction forward
Mean pairwise identity 86.50
Mean single sequence MFE -32.97
Consensus MFE -23.12
Energy contribution -22.35
Covariance contribution -0.77
Combinations/Pair 1.14
Mean z-score -2.05
Structure conservation index 0.70
SVM decision value 0.02
SVM RNA-class probability 0.545027
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4247559 107 + 22407834
CCGCAGUUGGAGCUCAAGUUUGGGGAUGUCUGCUAACCGCCGCGCUGGCAGAUAGGCUUUAGUCUGUCGCACUAAUCAAACUUUAUCUGAGCAAGUUUAUGCUCUAC
..(((......(((((..(..((.(((...(((.....(((.....))).(((((((....))))))))))...)))...))..)..))))).......)))..... ( -31.12)
>DroEre_CAF1 25756 97 + 1
CCGCAGUUGGU----------GGAGAAGUCUGCCAACCGCGGCACUGGCAGAUAGGCUUUAGUCUGUCGCACUAAUCAAACUUUAUCUGAGCAAGUUUAUGCUCGAC
((((.(((((.----------.((....))..))))).)))).....((.(((((((....))))))))).................((((((......)))))).. ( -36.40)
>DroYak_CAF1 31536 97 + 1
CCGCAGUUUGA----------GGAGAAGUCUGCAAACCGCAGCACUGGCUGAUAGGCUUUAGUCUGUCGCACUAAUCAAACUUUAUCUGAGUAAGUUUAUGCUCGAC
....(((((((----------..((.(((((((.....)))).))).((.(((((((....))))))))).))..))))))).....((((((......)))))).. ( -31.40)
>consensus
CCGCAGUUGGA__________GGAGAAGUCUGCAAACCGCAGCACUGGCAGAUAGGCUUUAGUCUGUCGCACUAAUCAAACUUUAUCUGAGCAAGUUUAUGCUCGAC
..((.(((((......................))))).)).......((.(((((((....)))))))))..................(((((......)))))... (-23.12 = -22.35 +  -0.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 4,247,599 – 4,247,697
Length 98
Sequences 3
Columns 107
Reading direction forward
Mean pairwise identity 73.40
Mean single sequence MFE -18.47
Consensus MFE -18.13
Energy contribution -17.80
Covariance contribution -0.33
Combinations/Pair 1.16
Mean z-score -1.12
Structure conservation index 0.98
SVM decision value 3.83
SVM RNA-class probability 0.999646
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4247599 98 + 22407834
CGCGCUGGCAGAUAGGCUUUAGUCUGUCGCACUAAUCAAACUUUAUCUGAGCAAGUUUAUGCUCUACUUUGUCCCACUCCCCAACA---------UACCCACUCGUC
.(((.(((..(((((((....)))))))....................(((((......)))))......................---------...)))..))). ( -18.30)
>DroEre_CAF1 25786 107 + 1
GGCACUGGCAGAUAGGCUUUAGUCUGUCGCACUAAUCAAACUUUAUCUGAGCAAGUUUAUGCUCGACUUUGUCCCACUCACCACCUACUACUCACCACCCACUCGUC
((((..(((.(((((((....))))))))).................((((((......)))))).)..)))).................................. ( -20.60)
>DroYak_CAF1 31566 74 + 1
AGCACUGGCUGAUAGGCUUUAGUCUGUCGCACUAAUCAAACUUUAUCUGAGUAAGUUUAUGCUCGACUUUGUUC---------------------------------
((((..(((((((((((....)))))))...........((((.....)))).))))..))))...........--------------------------------- ( -16.50)
>consensus
AGCACUGGCAGAUAGGCUUUAGUCUGUCGCACUAAUCAAACUUUAUCUGAGCAAGUUUAUGCUCGACUUUGUCCCACUC_CCA_C___________ACCCACUCGUC
((((..(((.(((((((....)))))))))..................(((((......)))))..)..)))).................................. (-18.13 = -17.80 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:51 2006